Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003905.1 Kokia drynarioides strain JFW-HI SEQ_116967, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 11920
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32


Found at i:7668 original size:29 final size:30

Alignment explanation


    Indices: 7619--7675  Score: 89
    Period size: 29  Copynumber: 1.9  Consensus size: 30

       7609 GGATTGGATT

                       *   *              
       7619 AAATCAAAATTTCATTTATAAAATTACATA
          1 AAATCAAAATTCCATGTATAAAATTACATA

                                        
       7649 AAATCAAAA-TCCATGTATAAAATTACA
          1 AAATCAAAATTCCATGTATAAAATTACA

       7676 CATTAGATCG


Statistics
Matches: 25,  Mismatches: 2, Indels: 1
        0.89            0.07        0.04

Matches are distributed among these distances:
  29   16  0.64
  30    9  0.36

ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32


Consensus pattern (30 bp):   
AAATCAAAATTCCATGTATAAAATTACATA

Found at i:8389 original size:21 final size:22

Alignment explanation


    Indices: 8365--8416  Score: 52
    Period size: 23  Copynumber: 2.4  Consensus size: 22

       8355 ACTTTTCTTC

                          * *     
       8365 ATATGATATAAAT-CATATAAT
          1 ATATGATATAAATAAAAATAAT

                * *                
       8386 ATATAAAATAAATGAAAAATAAT
          1 ATATGATATAAAT-AAAAATAAT

                    
       8409 ATATGATA
          1 ATATGATA

       8417 AACTTGAAAA


Statistics
Matches: 23,  Mismatches: 6, Indels: 2
        0.74            0.19        0.06

Matches are distributed among these distances:
  21   11  0.48
  23   12  0.52

ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33


Consensus pattern (22 bp):   
ATATGATATAAATAAAAATAAT

Found at i:11058 original size:36 final size:36

Alignment explanation


    Indices: 11011--11083  Score: 146
    Period size: 36  Copynumber: 2.0  Consensus size: 36

      11001 AACTTACTGC

                                                
      11011 GTCAGAGGTTGTTGAGCCAAAGAGACAAAATGATAT
          1 GTCAGAGGTTGTTGAGCCAAAGAGACAAAATGATAT

                                                
      11047 GTCAGAGGTTGTTGAGCCAAAGAGACAAAATGATAT
          1 GTCAGAGGTTGTTGAGCCAAAGAGACAAAATGATAT

             
      11083 G
          1 G

      11084 ACATTCATCA


Statistics
Matches: 37,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  36   37  1.00

ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22


Consensus pattern (36 bp):   
GTCAGAGGTTGTTGAGCCAAAGAGACAAAATGATAT
Done.